A modular tool to aggregate results from bioinformatics analyses across many samples into a single report.
Report generated on 2019-02-21, 17:26 based on data in:
/common/bermanblab/data/public_data/ENCODE/SNYDER_CRISPRi/ALIGNMENT
General Statistics
Showing 171/171 rows and 6/6 columns.| Sample Name | % Assigned | M Assigned | % rRNA | % mRNA | % Aligned | M Aligned |
|---|---|---|---|---|---|---|
| ENCSR000CPH_1 | 61.3% | 163.1 | 0.0% | 83.6% | 83.5% | 94.9 |
| ENCSR000CPH_2 | 60.2% | 168.6 | 0.0% | 82.6% | 83.1% | 98.9 |
| ENCSR011GAO_1 | 42.8% | 34.1 | 0.0% | 63.7% | 79.0% | 25.4 |
| ENCSR011GAO_2 | 54.7% | 59.0 | 0.0% | 82.1% | 81.7% | 34.0 |
| ENCSR016WFQ_1 | 60.3% | 62.8 | 0.0% | 81.8% | 82.0% | 37.3 |
| ENCSR016WFQ_2 | 50.8% | 41.8 | 0.0% | 74.4% | 79.7% | 26.8 |
| ENCSR024HAR_1 | 54.0% | 53.4 | 0.0% | 90.3% | 67.4% | 28.5 |
| ENCSR024HAR_2 | 53.0% | 34.7 | 0.0% | 85.4% | 69.5% | 19.7 |
| ENCSR028FBD_1 | 48.6% | 48.1 | 0.0% | 90.1% | 59.1% | 25.8 |
| ENCSR028FBD_2 | 46.4% | 42.5 | 0.0% | 88.7% | 58.9% | 22.9 |
| ENCSR039VEQ_1 | 55.9% | 41.2 | 0.0% | 82.2% | 79.5% | 24.0 |
| ENCSR039VEQ_3 | 48.8% | 47.8 | 0.0% | 85.1% | 65.2% | 26.9 |
| ENCSR039VEQ_4 | 46.7% | 45.2 | 0.0% | 85.1% | 62.4% | 25.3 |
| ENCSR043UMW_3 | 45.5% | 43.2 | 0.0% | 75.1% | 68.7% | 27.6 |
| ENCSR043UMW_4 | 42.4% | 48.1 | 0.0% | 72.3% | 66.3% | 31.9 |
| ENCSR046FQX_1 | 49.5% | 47.0 | 0.0% | 85.6% | 64.8% | 26.5 |
| ENCSR046FQX_2 | 47.3% | 46.0 | 0.0% | 84.7% | 64.2% | 25.9 |
| ENCSR052BWT_1 | 47.6% | 35.0 | 0.0% | 64.5% | 82.9% | 25.9 |
| ENCSR052BWT_2 | 32.4% | 48.1 | 76.2% | 36.5 | ||
| ENCSR052ZPX_3 | 56.6% | 51.8 | 0.0% | 88.6% | 72.8% | 28.1 |
| ENCSR052ZPX_4 | 54.0% | 46.8 | 0.0% | 88.1% | 68.8% | 25.6 |
| ENCSR069OUL_1 | 47.5% | 46.9 | 0.0% | 73.2% | 79.7% | 30.3 |
| ENCSR069OUL_2 | 54.7% | 58.1 | 0.0% | 76.0% | 84.2% | 36.7 |
| ENCSR073QLQ_1 | 35.1% | 37.1 | 0.0% | 89.1% | 42.3% | 20.0 |
| ENCSR073QLQ_2 | 43.0% | 45.2 | 0.0% | 83.3% | 59.6% | 25.8 |
| ENCSR074FBG_1 | 34.7% | 41.4 | 0.0% | 81.5% | 51.5% | 23.1 |
| ENCSR074FBG_2 | 32.9% | 42.4 | 0.0% | 81.7% | 51.4% | 23.0 |
| ENCSR084NTT_1 | 62.4% | 79.9 | 0.0% | 87.6% | 82.4% | 43.8 |
| ENCSR084NTT_2 | 61.4% | 64.0 | 0.0% | 86.3% | 82.2% | 35.6 |
| ENCSR095PIC_1 | 51.5% | 32.0 | 0.0% | 86.6% | 65.3% | 17.9 |
| ENCSR095PIC_2 | 57.5% | 52.1 | 0.0% | 90.8% | 71.4% | 27.7 |
| ENCSR096VPS_3 | 36.9% | 35.5 | 0.0% | 72.1% | 57.6% | 23.5 |
| ENCSR096VPS_4 | 36.6% | 25.4 | 0.0% | 59.4% | 68.5% | 20.5 |
| ENCSR103URL_1 | 61.9% | 43.2 | 0.0% | 90.0% | 80.3% | 23.1 |
| ENCSR103URL_2 | 57.9% | 62.3 | 0.0% | 88.3% | 78.8% | 33.4 |
| ENCSR104JMN_1 | 50.7% | 53.2 | 0.0% | 85.7% | 64.6% | 30.2 |
| ENCSR104JMN_2 | 43.0% | 41.1 | 0.0% | 79.7% | 58.3% | 25.0 |
| ENCSR104QKG_3 | 36.3% | 25.2 | 0.0% | 80.5% | 55.6% | 14.2 |
| ENCSR104QKG_4 | 38.1% | 32.7 | 0.0% | 81.5% | 56.5% | 18.5 |
| ENCSR123IMQ_1 | 46.7% | 31.0 | 0.0% | 88.3% | 58.9% | 16.8 |
| ENCSR123IMQ_2 | 56.0% | 40.8 | 0.0% | 88.6% | 70.9% | 22.2 |
| ENCSR126GEQ_1 | 32.0% | 42.4 | 0.0% | 86.6% | 40.4% | 23.1 |
| ENCSR126GEQ_2 | 31.8% | 35.1 | 0.0% | 82.0% | 46.1% | 19.5 |
| ENCSR160YSN_1 | 44.4% | 12.5 | 0.0% | 64.6% | 78.2% | 9.3 |
| ENCSR160YSN_2 | 35.3% | 62.0 | 0.0% | 82.4% | 46.6% | 35.8 |
| ENCSR171KMM_1 | 43.7% | 46.4 | 0.0% | 71.6% | 80.2% | 30.0 |
| ENCSR171KMM_2 | 53.1% | 46.2 | 0.0% | 83.7% | 71.9% | 26.5 |
| ENCSR171KMM_3 | 47.8% | 48.3 | 0.0% | 79.8% | 67.0% | 29.2 |
| ENCSR171KMM_4 | 46.5% | 66.1 | 0.0% | 81.5% | 65.1% | 38.7 |
| ENCSR171RTN_1 | 49.2% | 48.2 | 0.0% | 86.4% | 68.3% | 26.2 |
| ENCSR171RTN_2 | 33.8% | 42.9 | 0.0% | 82.6% | 52.0% | 23.1 |
| ENCSR181WYS_1 | 41.8% | 51.1 | 0.0% | 75.7% | 77.0% | 30.5 |
| ENCSR181WYS_2 | 53.8% | 54.2 | 0.0% | 81.3% | 78.2% | 31.7 |
| ENCSR181WYS_3 | 43.9% | 44.0 | 0.0% | 78.9% | 63.8% | 26.5 |
| ENCSR181WYS_4 | 53.4% | 44.8 | 0.0% | 86.6% | 73.1% | 24.5 |
| ENCSR184VVN_1 | 57.5% | 56.5 | 0.0% | 82.3% | 80.2% | 33.0 |
| ENCSR184VVN_2 | 56.1% | 69.5 | 0.0% | 82.4% | 77.8% | 40.5 |
| ENCSR190RZZ_1 | 49.6% | 31.3 | 0.0% | 85.3% | 65.3% | 17.7 |
| ENCSR190RZZ_2 | 47.0% | 39.4 | 0.0% | 79.6% | 67.7% | 23.7 |
| ENCSR200UDS_1 | 41.9% | 36.0 | 0.0% | 81.5% | 55.7% | 21.3 |
| ENCSR200UDS_2 | 48.7% | 38.3 | 0.0% | 88.2% | 60.5% | 21.1 |
| ENCSR223QTD_1 | 43.7% | 37.1 | 0.0% | 60.4% | 82.6% | 29.5 |
| ENCSR223QTD_2 | 34.4% | 42.8 | 0.0% | 70.0% | 73.2% | 26.8 |
| ENCSR235ZEI_1 | 58.2% | 54.7 | 0.0% | 85.9% | 77.2% | 30.6 |
| ENCSR235ZEI_3 | 50.8% | 57.4 | 0.0% | 89.0% | 65.2% | 30.7 |
| ENCSR235ZEI_4 | 55.4% | 56.9 | 0.0% | 85.6% | 74.6% | 31.8 |
| ENCSR243VNX_1 | 38.7% | 31.7 | 0.0% | 60.6% | 79.3% | 24.6 |
| ENCSR243VNX_2 | 61.3% | 47.6 | 0.0% | 89.3% | 79.7% | 25.6 |
| ENCSR263IOO_1 | 53.4% | 45.0 | 0.0% | 76.8% | 80.0% | 28.2 |
| ENCSR263IOO_2 | 57.3% | 52.8 | 0.0% | 84.4% | 80.1% | 29.9 |
| ENCSR267BHU_1 | 50.1% | 43.2 | 0.0% | 83.0% | 66.1% | 25.2 |
| ENCSR267BHU_2 | 49.1% | 73.9 | 0.0% | 87.8% | 61.0% | 40.8 |
| ENCSR268DNJ_1 | 36.5% | 45.6 | 43.2% | 24.7 | ||
| ENCSR268DNJ_2 | 39.3% | 27.4 | 0.0% | 86.4% | 49.1% | 15.1 |
| ENCSR294ZCD_1 | 31.8% | 32.2 | 0.0% | 79.5% | 51.1% | 17.9 |
| ENCSR294ZCD_2 | 38.3% | 30.3 | 0.0% | 82.6% | 56.8% | 16.8 |
| ENCSR299HUJ_1 | 62.0% | 54.8 | 0.0% | 87.7% | 81.9% | 30.1 |
| ENCSR299HUJ_3 | 46.3% | 38.2 | 0.0% | 85.1% | 64.8% | 21.0 |
| ENCSR299HUJ_4 | 50.7% | 65.9 | 0.0% | 84.3% | 70.6% | 37.1 |
| ENCSR357LVC_3 | 41.8% | 40.0 | 0.0% | 67.0% | 70.3% | 28.7 |
| ENCSR357LVC_4 | 48.7% | 45.0 | 0.0% | 87.9% | 65.3% | 24.1 |
| ENCSR359VJC_1 | 11.1% | 18.9 | 0.1% | 52.9% | 32.7% | 10.4 |
| ENCSR359VJC_2 | 6.7% | 16.6 | 0.2% | 40.3% | 24.3% | 9.3 |
| ENCSR369BHC_1 | 40.5% | 29.0 | 0.0% | 64.3% | 79.9% | 21.1 |
| ENCSR369BHC_2 | 57.0% | 60.7 | 0.0% | 86.2% | 80.4% | 33.4 |
| ENCSR376CFR_1 | 28.6% | 53.9 | 0.0% | 75.0% | 54.1% | 30.4 |
| ENCSR376CFR_2 | 43.4% | 47.5 | 0.0% | 81.8% | 58.8% | 27.9 |
| ENCSR381TNV_1 | 45.7% | 29.9 | 0.0% | 88.7% | 57.8% | 16.1 |
| ENCSR381TNV_2 | 50.2% | 22.6 | 0.0% | 89.3% | 62.6% | 12.2 |
| ENCSR385ZTW_1 | 48.3% | 54.6 | 0.0% | 72.7% | 81.3% | 35.5 |
| ENCSR385ZTW_2 | 53.8% | 47.6 | 0.0% | 77.7% | 80.0% | 29.5 |
| ENCSR385ZTW_3 | 40.1% | 36.5 | 0.0% | 62.3% | 72.3% | 28.1 |
| ENCSR385ZTW_4 | 41.6% | 36.4 | 0.0% | 67.1% | 69.6% | 26.0 |
| ENCSR389OCD_1 | 43.7% | 43.7 | 0.0% | 86.1% | 55.0% | 24.6 |
| ENCSR389OCD_2 | 44.3% | 39.7 | 0.0% | 91.3% | 52.4% | 21.0 |
| ENCSR399QAP_1 | 49.8% | 65.9 | 0.0% | 82.3% | 68.4% | 38.6 |
| ENCSR399QAP_2 | 51.9% | 54.7 | 0.0% | 78.3% | 73.3% | 33.9 |
| ENCSR409OFU_1 | 7.6% | 23.5 | 0.3% | 42.3% | 29.4% | 13.1 |
| ENCSR409OFU_2 | 3.9% | 17.5 | 0.4% | 27.9% | 18.9% | 10.3 |
| ENCSR469EFL_1 | 23.9% | 34.8 | 0.1% | 76.9% | 39.7% | 19.0 |
| ENCSR469EFL_2 | 29.6% | 34.0 | 0.0% | 80.3% | 46.0% | 18.7 |
| ENCSR545HTM_1 | 56.9% | 76.1 | 0.0% | 77.5% | 84.1% | 47.5 |
| ENCSR545HTM_2 | 52.4% | 59.5 | 0.0% | 86.6% | 77.9% | 31.9 |
| ENCSR550FIL_1 | 30.2% | 37.6 | 0.0% | 79.5% | 49.1% | 20.6 |
| ENCSR550FIL_2 | 46.5% | 29.1 | 0.0% | 88.5% | 58.5% | 15.7 |
| ENCSR552HTC_1 | 29.1% | 46.8 | 0.0% | 86.9% | 35.7% | 25.3 |
| ENCSR552HTC_2 | 30.5% | 56.7 | 0.0% | 84.4% | 41.0% | 30.5 |
| ENCSR557BMX_1 | 45.2% | 34.3 | 0.0% | 82.7% | 59.3% | 20.1 |
| ENCSR557BMX_2 | 40.7% | 37.1 | 0.0% | 89.5% | 49.2% | 20.0 |
| ENCSR591QYK_1 | 40.6% | 34.9 | 0.0% | 85.7% | 54.1% | 19.2 |
| ENCSR591QYK_2 | 30.1% | 32.7 | 0.0% | 77.6% | 49.5% | 18.5 |
| ENCSR608ORR_1 | 56.3% | 72.2 | 0.0% | 86.3% | 79.3% | 39.7 |
| ENCSR608ORR_2 | 39.3% | 43.7 | 0.0% | 78.5% | 72.9% | 24.5 |
| ENCSR619EYC_1 | 30.0% | 23.8 | 0.0% | 81.1% | 42.1% | 13.6 |
| ENCSR619EYC_2 | 35.5% | 32.6 | 0.0% | 85.7% | 46.0% | 18.0 |
| ENCSR620DOP_1 | 43.9% | 47.2 | 0.0% | 86.8% | 62.0% | 25.3 |
| ENCSR620DOP_2 | 50.9% | 50.6 | 0.0% | 88.4% | 63.3% | 27.7 |
| ENCSR650QAK_1 | 51.0% | 29.5 | 0.0% | 86.3% | 67.9% | 16.3 |
| ENCSR650QAK_3 | 41.4% | 65.2 | 0.0% | 82.2% | 58.4% | 37.3 |
| ENCSR650QAK_4 | 37.4% | 59.5 | 0.0% | 82.3% | 58.9% | 32.3 |
| ENCSR688UTN_1 | 49.9% | 40.2 | 0.0% | 78.5% | 75.2% | 24.3 |
| ENCSR688UTN_3 | 49.0% | 45.9 | 0.0% | 88.0% | 64.1% | 24.8 |
| ENCSR688UTN_4 | 52.5% | 50.2 | 0.0% | 89.1% | 67.8% | 26.9 |
| ENCSR701TVL_1 | 53.1% | 52.5 | 0.0% | 83.4% | 70.0% | 30.6 |
| ENCSR701TVL_2 | 57.7% | 81.5 | 0.0% | 83.7% | 75.9% | 47.5 |
| ENCSR713AEC_1 | 46.3% | 41.6 | 0.0% | 67.5% | 80.1% | 29.5 |
| ENCSR713AEC_2 | 43.2% | 40.6 | 0.0% | 61.1% | 82.1% | 31.8 |
| ENCSR715EDZ_2 | 53.5% | 42.0 | 0.0% | 83.4% | 75.5% | 23.9 |
| ENCSR715EDZ_3 | 34.7% | 47.5 | 0.0% | 83.8% | 46.0% | 26.6 |
| ENCSR715EDZ_4 | 41.3% | 69.6 | 0.0% | 79.9% | 60.1% | 40.9 |
| ENCSR731FEO_3 | 43.9% | 32.9 | 0.0% | 84.6% | 61.0% | 18.2 |
| ENCSR731FEO_4 | 33.1% | 42.0 | 0.0% | 78.8% | 57.5% | 23.1 |
| ENCSR731XIE_1 | 28.0% | 33.9 | 0.0% | 85.5% | 35.5% | 18.6 |
| ENCSR731XIE_2 | 29.5% | 34.8 | 0.0% | 78.9% | 46.9% | 19.4 |
| ENCSR733ROU_1 | 32.4% | 32.7 | 0.0% | 88.0% | 40.0% | 17.6 |
| ENCSR733ROU_2 | 32.0% | 41.7 | 0.0% | 87.3% | 39.6% | 22.7 |
| ENCSR733TFF_1 | 50.7% | 35.0 | 0.0% | 85.3% | 66.3% | 19.8 |
| ENCSR733TFF_2 | 33.5% | 22.1 | 0.0% | 81.2% | 44.2% | 13.1 |
| ENCSR734VBC_1 | 36.2% | 50.6 | 0.0% | 86.9% | 47.4% | 27.3 |
| ENCSR734VBC_2 | 30.3% | 30.9 | 0.0% | 86.9% | 38.0% | 16.7 |
| ENCSR761AQZ_1 | 7.0% | 27.0 | 0.2% | 40.9% | 25.2% | 15.3 |
| ENCSR761AQZ_2 | 5.8% | 23.3 | 0.3% | 36.6% | 23.5% | 13.5 |
| ENCSR773VKE_1 | 47.3% | 43.2 | 0.0% | 84.8% | 61.4% | 24.6 |
| ENCSR773VKE_2 | 41.0% | 76.5 | 0.0% | 85.8% | 51.8% | 43.0 |
| ENCSR781XJD_1 | 47.8% | 50.2 | 0.0% | 69.1% | 80.7% | 34.9 |
| ENCSR781XJD_2 | 47.8% | 55.7 | 0.0% | 80.9% | 76.7% | 31.7 |
| ENCSR800PWS_1 | 24.9% | 37.6 | 0.0% | 80.0% | 36.0% | 20.8 |
| ENCSR800PWS_2 | 42.2% | 29.3 | 0.0% | 87.5% | 55.0% | 15.8 |
| ENCSR808HQN_1 | 50.0% | 66.0 | 0.0% | 80.6% | 77.3% | 38.4 |
| ENCSR808HQN_3 | 37.9% | 38.7 | 0.0% | 86.7% | 48.7% | 21.0 |
| ENCSR808HQN_4 | 43.7% | 46.9 | 0.0% | 86.7% | 58.1% | 25.4 |
| ENCSR810RIC_1 | 56.2% | 36.1 | 0.0% | 82.0% | 79.4% | 21.2 |
| ENCSR810RIC_2 | 30.9% | 50.8 | 0.0% | 71.9% | 70.7% | 29.3 |
| ENCSR819PCU_1 | 57.6% | 60.8 | 0.0% | 87.6% | 77.6% | 33.1 |
| ENCSR819PCU_2 | 40.4% | 25.6 | 0.0% | 86.8% | 53.0% | 13.8 |
| ENCSR819PCU_3 | 41.6% | 29.3 | 0.0% | 85.4% | 54.9% | 16.3 |
| ENCSR850LOZ_1 | 53.9% | 57.8 | 0.0% | 85.3% | 78.6% | 31.7 |
| ENCSR850LOZ_2 | 51.6% | 73.5 | 0.0% | 80.8% | 79.2% | 42.7 |
| ENCSR862UHT_1 | 53.1% | 63.6 | 0.0% | 87.0% | 67.5% | 35.5 |
| ENCSR862UHT_2 | 51.2% | 33.3 | 0.0% | 83.9% | 66.7% | 19.3 |
| ENCSR898UNK_1 | 41.9% | 46.2 | 0.0% | 82.4% | 57.6% | 26.7 |
| ENCSR898UNK_2 | 37.1% | 48.3 | 0.0% | 84.2% | 51.3% | 26.7 |
| ENCSR900AQL_1 | 59.5% | 53.4 | 0.0% | 84.9% | 76.5% | 30.6 |
| ENCSR900AQL_2 | 65.4% | 58.0 | 0.0% | 87.3% | 80.7% | 32.6 |
| ENCSR905SEH_1 | 32.3% | 30.0 | 0.0% | 85.5% | 43.9% | 16.1 |
| ENCSR905SEH_2 | 37.7% | 31.5 | 0.0% | 84.9% | 52.6% | 17.2 |
| ENCSR911BML_1 | 57.8% | 72.1 | 0.0% | 88.3% | 79.5% | 38.7 |
| ENCSR911BML_2 | 26.0% | 43.0 | 0.0% | 67.1% | 63.1% | 25.8 |
| ENCSR942XXL_1 | 44.8% | 38.9 | 0.0% | 65.6% | 80.0% | 28.3 |
| ENCSR942XXL_2 | 45.9% | 59.1 | 0.0% | 83.0% | 75.7% | 32.2 |
| FAIL_EXAMPLE | 0.0% | 0.0 | 0.0% | 29.3% | 0.0% | 0.0 |
Preseq
Preseq estimates the complexity of a library, showing how many additional unique reads are sequenced for increasing total read count. A shallow curve indicates complexity saturation. The dashed line shows a perfectly complex library where total reads = unique reads.
Complexity curve
Note that the x axis is trimmed at the point where all the datasets show 80% of their maximum y-value, to avoid ridiculous scales.
Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).
featureCounts
Subread featureCounts is a highly efficient general-purpose read summarization program that counts mapped reads for genomic features such as genes, exons, promoter, gene bodies, genomic bins and chromosomal locations.
Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).
Picard
Picard is a set of Java command line tools for manipulating high-throughput sequencing data.
RnaSeqMetrics Assignment
Number of bases in primary alignments that align to regions in the reference genome.
Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).
RnaSeqMetrics Strand Mapping
Number of aligned reads that map to the correct strand.
Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).
Gene Coverage
Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).
